@article{MTMT:30745372,
	title = {MemBlob database and server for identifying transmembrane regions using cryo-EM maps},
	url = {https://m2.mtmt.hu/api/publication/30745372},
	author = {Farkas, Bianka Vivien and Gáspárné Csizmadia, Georgina and Katona, Eszter and Tusnády, Gábor and Hegedűs, Tamás},
	doi = {10.1093/bioinformatics/btz539},
	journal-iso = {BIOINFORMATICS},
	journal = {BIOINFORMATICS},
	volume = {36},
	unique-id = {30745372},
	issn = {1367-4803},
	abstract = {The identification of transmembrane helices in transmembrane proteins is crucial, not only to understand their mechanism of action, but also to develop new therapies. While experimental data on the boundaries of membrane-embedded regions is sparse, this information is present in cryo-electron microscopy (cryo-EM) density maps and it has not been utilized yet for determining membrane regions. We developed a computational pipeline, where the inputs of a cryo-EM map, the corresponding atomistic structure, and the potential bilayer orientation determined by TMDET algorithm of a given protein result in an output defining the residues assigned to the bulk water phase, lipid interface, and the lipid hydrophobic core. Based on this method, we built a database involving published cryo-EM protein structures and a server to be able to compute this data for newly obtained structures.http://memblob.hegelab.org.Supplementary data are available at Bioinformatics online.},
	year = {2020},
	eissn = {1460-2059},
	pages = {2595-2598},
	orcid-numbers = {Farkas, Bianka Vivien/0000-0002-0258-6864; Gáspárné Csizmadia, Georgina/0000-0003-4321-9670; Hegedűs, Tamás/0000-0002-0331-9629}
}

@article{MTMT:1011228,
	title = {TMDET: web server for detecting transmembrane regions of proteins by using their 3D coordinates},
	url = {https://m2.mtmt.hu/api/publication/1011228},
	author = {Tusnády, Gábor and Dosztányi, Zsuzsanna and Simon, István},
	doi = {10.1093/bioinformatics/bti121},
	journal-iso = {BIOINFORMATICS},
	journal = {BIOINFORMATICS},
	volume = {21},
	unique-id = {1011228},
	issn = {1367-4803},
	abstract = {Summary: The structure of integral membrane proteins is determined in the absence of the lipid bilayer; consequently the membrane localization of the protein is usually not specified in the corresponding PDB file. Recently, we have developed a new method called TMDET which determines the most possible localization of the membrane relative to the protein structure, and gives the annotation of the membrane embedded parts of the sequence. The entire Protein Data Bank has been scanned by the new TMDET algorithm resulting in the database of structurally determined transmembrane proteins (PDB_TM). Here we present the web interface of the TMDET algorithm to allow scientists to determine the membrane localization of structural data prior to deposition or to analyze model structures. © The Author 2004. Published by Oxford University Press. All rights reserved.},
	year = {2005},
	eissn = {1460-2059},
	pages = {1276-1277},
	orcid-numbers = {Dosztányi, Zsuzsanna/0000-0002-3624-5937}
}